# List of top-scoring protein chains for t04-w0.5-1-o_notor-0.1-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue SCOP_domain SCOP_suid 5S 5N 12S 12S 10N 2h78A 302 1.76e-06 2ahrA 259 2.02e-06 a.100.1.10,c.2.1.6 126775,126776 1yb4A 295 2.18e-06 1vpdA 299 2.53e-06 a.100.1.1,c.2.1.6 113951,113952 2f1kA 279 3.14e-06 a.100.1.12,c.2.1.6 132772,132773 2g5cA 281 4.57e-06 a.100.1.12,c.2.1.6 134646,134647 2izzA 322 5.12e-06 1yqgA 263 5.38e-06 1np3A 338 6.46e-06 a.100.1.2,c.2.1.6 85946,85947 2pgdA 482 7.03e-06 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 8.20e-06 2cvzA 289 1.10e-05 a.100.1.1,c.2.1.6 130890,130891 1pgjA 478 1.28e-05 a.100.1.1,c.2.1.6 18783,30195 1bg6 359 1.44e-05 2pv7A 298 2.06e-05 1qmgA 524 2.31e-05 a.100.1.2,c.2.1.6 18785,30182 2graA 277 2.54e-05 3c24A 286 2.68e-05 2pgd 482 3.19e-05 2rcyA 262 3.65e-05 2ew2A 316 3.94e-05 1ks9A 291 4.96e-05 a.100.1.7,c.2.1.6 68857,68858 1yrlA 491 5.04e-05 1zejA 293 8.11e-05 2i76A 276 0.000119 1txgA 335 0.000130 a.100.1.6,c.2.1.6 112775,112776 1evyA 366 0.000147 a.100.1.6,c.2.1.6 18811,30215 1f0yA 302 0.000195 a.100.1.3,c.2.1.6 18793,30197 1i36A 264 0.000289 a.100.1.8,c.2.1.6 71108,71109 1z82A 335 0.000427 1jayA 212 0.000509 c.2.1.6 66478 1zcjA 463 0.000645 1bg6A 359 0.001629 a.100.1.5,c.2.1.6 18810,30214 1mv8A 436 0.002111 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2o3jA 481 0.004634 1dljA 402 0.007955 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2dpoA 319 0.008560 2qytA 317 0.01219 1x0vA 354 0.01298 1dliA 402 0.01320 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1ff9A 450 0.01484 c.2.1.3,d.81.1.2 30039,39954 1gdhA 320 0.02183 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.02443 c.2.1.4,c.23.12.1 30088,31348 1u8xX 472 0.04540 c.2.1.5,d.162.1.2 107741,107742 1s6yA 450 0.05191 c.2.1.5,d.162.1.2 105314,105315 2fssA 365 0.05340 1qv9A 283 0.06779 c.127.1.1 96356 1mx3A 347 0.07007 c.2.1.4,c.23.12.1 79638,79639 1wwkA 307 0.08092 1gpjA 404 0.08504 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2j6iA 364 0.08519 1ldg 316 0.08835 1j4aA 333 0.09180 c.2.1.4,c.23.12.1 71502,71503 1psdA 409 0.09321 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1pzgA 331 0.09515 c.2.1.5,d.162.1.1 95425,95426 1uxjA 309 0.09719 c.2.1.5,d.162.1.1 108112,108113 1t2dA 322 0.1031 c.2.1.5,d.162.1.1 99084,99085 1tltA 319 0.1131 c.2.1.3,d.81.1.5 107135,107136 1xdwA 331 0.1261 1vllA 334 0.1443 c.2.1.13 108834 1li4A 432 0.1502 c.2.1.4,c.23.12.3 84616,84617 1lssA 140 0.1506 c.2.1.9 74246 1xwfA 431 0.1543 c.2.1.4,c.23.12.3 122392,122393 1d4fA 431 0.1639 c.2.1.4,c.23.12.3 30110,31370 1up6A 416 0.1719 c.2.1.5,d.162.1.2 107976,107977 1x7dA 350 0.1790 c.2.1.13 114927 2g76A 335 0.1799 1ur5A 309 0.1818 c.2.1.5,d.162.1.1 99807,99808 1omoA 322 0.1933 c.2.1.13 104017 2hk9A 275 0.2078 1dxy 333 0.2186 2o4cA 380 0.2323 1v8bA 479 0.2894 c.2.1.4,c.23.12.3 113564,113565 2dbqA 334 0.3009 2d0iA 333 0.3195 2b0jA 358 0.3196 a.100.1.11,c.2.1.6 127639,127640 2pi1A 334 0.3446 1lldA 319 0.3548 c.2.1.5,d.162.1.1 30177,42144 1xeaA 323 0.4016 c.2.1.3,d.81.1.5 109572,109573 1qp8A 303 0.4038 c.2.1.4,c.23.12.1 30092,31352 1ygyA 529 0.4240 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1obbA 480 0.4516 c.2.1.5,d.162.1.2 86760,86761 2vhxA 377 0.4756 1up7A 417 0.4865 c.2.1.5,d.162.1.2 113374,113375 1sc6A 404 0.4907 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2d5cA 263 0.5463 2eggA 297 0.5476 2i6tA 303 0.5641 2gcgA 330 0.5880 1hyhA 309 0.6351 c.2.1.5,d.162.1.1 30150,42117 1guzA 310 0.6424 c.2.1.5,d.162.1.1 65586,65587 1nytA 271 0.7543 c.2.1.7,c.58.1.5 86417,86418 1dxyA 333 0.7622 c.2.1.4,c.23.12.1 30094,31354 6ldhA 329 0.7923 c.2.1.5,d.162.1.1 30161,42128 1p77A 272 0.8252 c.2.1.7,c.58.1.5 94214,94215 1vjtA 483 0.8796 c.2.1.5,d.162.1.2 100833,100834 2ewdA 317 0.9924 2cukA 311 1.021 2v7pA 310 1.112 1f06A 320 1.146 c.2.1.3,d.81.1.3 59556,59557 1npyA 271 1.149 c.2.1.7,c.58.1.5 85995,85996 2nloA 302 1.447 1a5zA 319 1.578 c.2.1.5,d.162.1.1 30181,42148 2nvwA 479 1.588 c.2.1.3,d.81.1.5 138665,138666 2axqA 467 1.597 3ceaA 346 1.633 1lehA 364 1.645 c.2.1.7,c.58.1.1 30268,33916 1gcuA 295 1.740 c.2.1.3,d.81.1.4 30063,39978 2aefA 234 1.755 1hdoA 206 1.804 c.2.1.2 60965 2gptA 523 1.972 2vojA 371 2.184 1ez4A 318 2.280 c.2.1.5,d.162.1.1 64917,64918 2dc1A 236 2.426 2ho3A 325 2.441 2o7sA 523 2.576 1pjcA 361 2.628 c.2.1.4,c.23.12.2 30101,31361 1nvtA 287 2.794 c.2.1.7,c.58.1.5 86270,86271 2d59A 144 3.101 c.2.1.8 131266 2glxA 332 3.307 3c85A 183 3.321 1k6xA 352 3.908 c.2.1.2 68238 1y81A 138 4.037 c.2.1.8 122731 2eklA 313 4.043 1j5pA 253 4.196 d.81.1.3,c.2.1.3 71577,83092 1qydA 313 4.263 c.2.1.2 96583 1ofgA 381 4.341 c.2.1.3,d.81.1.5 30064,39979 2hjsA 340 4.396 c.2.1.3,d.81.1.1 136547,136548 3c1aA 315 4.414 1a4iA 301 4.548 c.2.1.7,c.58.1.2 30278,33926 1vknA 351 4.563 c.2.1.3,d.81.1.1 108676,108677 1lsuA 147 4.669 c.2.1.9 74250 3bioA 304 4.807 2a4kA 263 5.084 c.2.1.2 126156 2cmdA 312 5.089 c.2.1.5,d.162.1.1 30135,42102 2hmvA 144 5.104 c.2.1.9 136615 1c1dA 355 5.208 c.2.1.7,c.58.1.1 30270,33918 1luaA 287 5.336 c.2.1.7,c.58.1.4 78216,78217 1nvmB 312 5.354 c.2.1.3,d.81.1.1 86251,86252 2p2sA 336 5.604 1h6dA 433 6.408 c.2.1.3,d.81.1.5 65656,65657 1vi2A 300 6.948 c.2.1.7,c.58.1.5 100726,100727 1xq6A 253 6.979 c.2.1.2 115829 1cf2O 337 6.999 c.2.1.3,d.81.1.1 29994,39909 1iukA 140 7.119 c.2.1.8 83712 2gz1A 366 7.903 c.2.1.3,d.81.1.1 135887,135888 1lc0A 294 8.147 c.2.1.3,d.81.1.4 73823,73824 1zh8A 340 8.239 c.2.1.3,d.81.1.5 125077,125078 2nqtA 352 8.423 1xgkA 352 8.548 c.2.1.2 115286 1scuA 288 9.056 c.2.1.8,c.23.4.1 30307,31135 2exxA 306 9.098 2g1uA 155 9.268 2o4uX 334 9.289 1l7dA 384 9.402 c.2.1.4,c.23.12.2 77774,77775 2q4eA 362 9.575 1drwA 273 9.820 c.2.1.3,d.81.1.3 30057,39972 2csuA 457 10.31 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 2r00A 336 10.51 2z1nA 260 11.21 1k2wA 256 11.48 c.2.1.2 90927 1rydA 387 12.56 c.2.1.3,d.81.1.5 118801,118802 2ixaA 444 12.72 1uufA 369 16.36 b.35.1.2,c.2.1.1 100006,100007 1xhlA 297 16.94 c.2.1.2 109591 2cdcA 366 16.94 2r6jA 318 17.07 1x13A 401 17.10 2jahA 247 17.25 2g17A 337 17.63 c.2.1.3,d.81.1.1 134512,134513 1fl2A 310 17.93 c.3.1.5,c.3.1.5 59869,59870 1b0aA 288 18.09 c.2.1.7,c.58.1.2 30286,33934 1orrA 347 18.38 c.2.1.2 93460 1othA 321 18.42 c.78.1.1,c.78.1.1 35260,35261 1hwxA 501 18.43 c.2.1.7,c.58.1.1 30250,33898 2czcA 334 18.70 d.81.1.1 131044 2p5yA 311 18.73 1yqdA 366 19.54 2bryA 497 19.76 1x7gA 261 19.82 c.2.1.2 114929 1xseA 295 20.52 c.2.1.2 115925 1gegA 256 20.71 c.2.1.2 29888 2pnfA 248 21.00 2pd6A 264 21.05 1ydeA 270 22.32 c.2.1.2 122980 1q7bA 244 22.63 c.2.1.2 96026 1yb1A 272 22.67 c.2.1.2 116599 2b69A 343 22.72 c.2.1.2 127974 2q46A 253 22.81 c.2.1.2 139825 2nxcA 254 23.04 c.66.1.39 138739 2ph5A 480 23.30 1e7wA 291 23.40 c.2.1.2 59373 1n7hA 381 23.50 c.2.1.2 80250 1fmcA 255 23.56 c.2.1.2 29856 2o23A 265 23.63 c.2.1.2 138884 1yqzA 438 24.43 1vl8A 267 24.48 c.2.1.2 108733 1drw 273 24.52 2h6eA 344 25.54 1vj0A 380 25.78 b.35.1.2,c.2.1.1 100786,100787 1xkqA 280 25.95 c.2.1.2 115417 1w6uA 302 26.25 c.2.1.2 114288 1e3jA 352 26.73 b.35.1.2,c.2.1.1 24765,29781 1sb8A 352 26.79 c.2.1.2 105410 1spxA 278 27.10 c.2.1.2 98958 1nffA 260 27.23 c.2.1.2 80457 1db3A 372 27.45 c.2.1.2 29813 1hxhA 253 27.94 c.2.1.2 76725 2ph3A 245 28.66 2ozpA 345 29.78 1yxmA 303 30.13 c.2.1.2 124192 1xhcA 367 30.26 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 2bzgA 232 31.15 c.66.1.36 129559 1zk4A 251 31.19 c.2.1.2 125176 2d8aA 348 31.26 1zq9A 285 31.55 c.66.1.24 125505 2z5lA 511 32.00 2c29D 337 32.80 1y1pA 342 32.82 c.2.1.2 122550 1hyuA 521 33.30 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 2v3aA 384 33.50 1b16A 254 33.97 c.2.1.2 29875 1xg5A 279 34.03 c.2.1.2 115277 2c5aA 379 34.09 c.2.1.2 129894 2cf5A 357 35.32 2r0cA 549 35.56 1ja9A 274 35.83 c.2.1.2 62817 2qa1A 500 36.02 2nwqA 272 36.13 2b5wA 357 36.55 1cydA 244 36.67 c.2.1.2 29825 1qycA 308 36.72 c.2.1.2 96581 1oc2A 348 37.01 c.2.1.2 92765 2c07A 285 37.12 c.2.1.2 129577 1b7gO 340 37.34 c.2.1.3,d.81.1.1 29992,39907 1e6wA 260 37.81 c.2.1.2 59326 2jfgA 445 37.92 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 1hdcA 253 38.43 c.2.1.2 29862 1kyqA 274 39.15 c.2.1.11,e.37.1.1 73281,73282 1zmdA 474 39.21 1i2cA 404 39.24 c.2.1.2 83666 1lluA 342 39.58 b.35.1.2,c.2.1.1 91064,91065 1trb 320 41.33 2ag5A 246 41.51 c.2.1.2 126719 2bkaA 242 41.58 c.2.1.2 128666 1t2aA 375 42.37 c.2.1.2 99078 1zmtA 254 42.55 c.2.1.2 125363 1rkxA 357 42.57 c.2.1.2 97631 1zk7A 467 42.63 1bdbA 277 42.85 c.2.1.2 29874 2a9fA 398 42.99 1pl8A 356 43.09 b.35.1.2,c.2.1.1 94878,94879 2gdzA 267 43.24 c.2.1.2 135043 1nhp 447 43.39 1ek6A 348 44.58 c.2.1.2 29800 1qyrA 252 44.70 c.66.1.24 104657 2cfcA 250 45.07 1rpnA 335 45.22 c.2.1.2 97708 1f8fA 371 45.26 b.35.1.2,c.2.1.1 83246,83247 1vm6A 228 46.02 d.81.1.3,c.2.1.3 108877,118631 3c4aA 381 46.19 2yyyA 343 46.19 3grs 478 46.59 2h1rA 299 47.54 1y56B 382 47.72 1gesA 450 47.80 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1qrrA 394 48.66 c.2.1.2 29824 2gasA 307 48.72 2bgkA 278 48.74 c.2.1.2 128480 2yqzA 263 48.90 2avnA 260 50.59 c.66.1.41 127380 2yutA 207 50.66 1q7gA 359 50.66 c.2.1.3,d.81.1.2 96038,96039 1ve3A 227 51.01 c.66.1.43 120010 2z1mA 345 51.12 1pvvA 315 51.16 c.78.1.1,c.78.1.1 95190,95191 1i24A 404 51.32 c.2.1.2 83663 1x1tA 260 51.32 c.2.1.2 121597 1zd8A 227 52.06 2p4hX 322 52.30 1pbeA 394 53.92 c.3.1.2,d.16.1.2 30338,37869 1o6zA 303 54.49 c.2.1.5,d.162.1.1 81107,81108 1wmaA 276 56.55 c.2.1.2 121042 1jqbA 351 57.38 b.35.1.2,c.2.1.1 77151,77152 2qq5A 260 57.51 1ebfA 358 57.71 c.2.1.3,d.81.1.2 30033,39948 2ouiA 360 57.93 1pwxA 254 58.07 c.2.1.2 95262 1xel 338 58.76 2cmd 312 59.32 2pzmA 330 59.92 1eny 268 60.09 1mo9A 523 60.15 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 2cduA 452 60.69 1q1rA 431 60.70 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1id1A 153 61.13 c.2.1.9 62286 1wznA 252 62.68 c.66.1.43 121525 1eyzA 392 64.06 b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 1eudA 311 64.44 c.2.1.8,c.23.4.1 30312,31140 2gf3A 389 66.03 c.3.1.2,d.16.1.3 135070,135071 1l1eA 287 66.94 c.66.1.18 73454 1kevA 351 67.26 b.35.1.2,c.2.1.1 24749,29765 2gqwA 408 68.56 1z7bA 358 70.23 c.2.1.2 124599 2fk8A 318 70.59 c.66.1.18 133648 1b6rA 355 70.86 b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 1nhpA 447 71.01 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1yzhA 214 72.06 c.66.1.53 124277 1xa0A 328 72.38 b.35.1.2,c.2.1.1 115021,115022 1y8cA 246 72.53 c.66.1.43 116563 3ladA 476 72.66 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 3bkwA 243 75.20 1dv2A 452 75.39 b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1iz0A 302 75.95 b.35.1.2,c.2.1.1 83821,83822 2ejwA 332 76.23 1uirA 314 76.37 c.66.1.17 99429 1zud1 251 76.83 1l9cA 389 78.23 c.3.1.2,d.16.1.3 77815,77816 1yb2A 275 78.25 c.66.1.13 122868 2fr1A 486 78.55 c.2.1.2,c.2.1.2 133961,133962 1m1nB 522 79.32 c.92.2.3 78418 1y9aA 360 79.45 1n8kA 374 79.46 b.35.1.2,c.2.1.1 80298,80299 3c8mA 331 79.62 2jaeA 489 79.93 1d7yA 408 80.34 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1e6uA 321 80.76 c.2.1.2 29805 2a35A 215 81.18 c.2.1.2 126072 2yx0A 342 82.02 1p0fA 373 82.02 b.35.1.2,c.2.1.1 87642,87643 1h5qA 265 82.42 c.2.1.2 60643 1r6dA 337 83.57 c.2.1.2 97148 2fdxA 138 84.23 c.23.5.1 31192 1eq2A 310 84.69 c.2.1.2 29814 2jhfA 374 85.09 b.35.1.2,c.2.1.1 138314,138315 2b9wA 424 85.21 2q1sA 377 86.84 2cmgA 262 87.00 2gn4A 344 87.13 2hcyA 347 87.15 1gtmA 419 87.37 c.2.1.7,c.58.1.1 30223,33871 2rghA 571 88.26 1nhsA 447 88.84 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1x1eA 239 89.14 5nul 138 89.21 2pn1A 331 89.23 1vl6A 388 89.46 c.2.1.7,c.58.1.3 108724,108725